PTSDBrainomics CELLxGENE Census 2024-07-01 cutoff 0 MADs 5

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        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411
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        About MultiQC

        This report was generated using MultiQC, version 1.28

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        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        PTSDBrainomics CELLxGENE Census 2024-07-01 cutoff 0 MADs 5

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        This report has been generated by the PavlidisLab/sc-annotation-pipeline analysis pipeline.
        Report generated on 2025-09-22, 13:54 PDT based on data in: /space/grp/rschwartz/rschwartz/cell_annotation_cortex.nf/work/1a/f1aa455dd379e8284ba01081b8935f/PTSDBrainomics

        Sample cell type composition

        Composition per sample of predicted cell types.

        Created with MultiQC

        Leiden cluster composition (cell types)

        Leiden clustering performed on log-transformed data with top 2000 variable genes, 10 PCs, 30 neighbors, resolution = 0.3.

        Created with MultiQC

        Cell type markers

        Expression of select markers. Count are averaged across cell-type labels and z-score normalized across genes.

        Created with MultiQC

        Cell type UMAP

        UMAP of the cell type labels, sample names and leiden clusters.


        PTSDBrainomics | sc31 outliers


        PTSDBrainomics | sc43 upset


        PTSDBrainomics | sc1 outliers


        PTSDBrainomics | sc1 upset


        PTSDBrainomics | sc33 upset


        PTSDBrainomics | sc18 outliers


        PTSDBrainomics | sc33 outliers


        PTSDBrainomics | sc3 outliers


        PTSDBrainomics | sc44 outliers


        PTSDBrainomics | sc11 upset


        PTSDBrainomics | sc2 outliers


        PTSDBrainomics | sc32 outliers


        PTSDBrainomics | sc34 outliers


        PTSDBrainomics | sc13 upset


        PTSDBrainomics | sc42 outliers


        PTSDBrainomics | sc21 outliers


        PTSDBrainomics | sc5 outliers


        PTSDBrainomics | sc35 outliers


        PTSDBrainomics | sc43 outliers


        PTSDBrainomics | sc3 upset


        PTSDBrainomics | sc31 upset


        PTSDBrainomics | sc44 upset


        PTSDBrainomics | sc6 outliers


        PTSDBrainomics | sc6 upset


        PTSDBrainomics | sc34 upset


        PTSDBrainomics | sc7 outliers


        PTSDBrainomics | sc21 upset


        PTSDBrainomics | sc7 upset


        PTSDBrainomics | sc35 upset


        PTSDBrainomics | sc2 upset


        PTSDBrainomics | sc11 outliers


        PTSDBrainomics | sc18 upset


        PTSDBrainomics | sc12 outliers


        PTSDBrainomics | sc12 upset


        PTSDBrainomics | sc13 outliers


        PTSDBrainomics | sc32 upset


        PTSDBrainomics | sc42 upset


        PTSDBrainomics | sc5 upset